Browsing Bergen Open Research Archive by Author "Johnston, Iain George"
Now showing items 1-19 of 19
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2-Deoxy-D-glucose couples mitochondrial DNA replication with mitochondrial fitness and promotes the selection of wild-type over mutant mitochondrial DNA
Pantic, Boris; Ives, Daniel; Mennuni, Mara; Perez-Rodriguez, Diego; Fernandez-Pelayo, Uxoa; Lopez de Arbina, Amaia; Muñoz-Oreja, Mikel; Villar-Fernandez, Marina; Dang, Thanh-mai Julie; Vergani, Lodovica; Johnston, Iain George; Pitceathly, Robert D. S.; McFarland, Robert; Hanna, Michael G.; Taylor, Robert W.; Holt, Ian J.; Spinazzola, Antonella (Journal article; Peer reviewed, 2021)Pathological variants of human mitochondrial DNA (mtDNA) typically co-exist with wild-type molecules, but the factors driving the selection of each are not understood. Because mitochondrial fitness does not favour the ... -
Altered collective mitochondrial dynamics in the Arabidopsis msh1 mutant compromising organelle DNA maintenance
Chustecki, Joanna M.; Etherington, Ross D; Gibbs, Daniel J.; Johnston, Iain George (Journal article; Peer reviewed, 2022)Mitochondria form highly dynamic populations in the cells of plants (and almost all eukaryotes). The characteristics and benefits of this collective behaviour, and how it is influenced by nuclear features, remain to be ... -
The cellular basis of feeding-dependent body size plasticity in sea anemones
Garschall, Kathrin; Pascual Carreras, Eudald; Pascual, Belen Garcia; Filimonova, Daria; Guse, Annika; Johnston, Iain George; Steinmetz, Patrick (Journal article; Peer reviewed, 2024)Many animals share a lifelong capacity to adapt their growth rates and body sizes to changing environmental food supplies. However, the cellular and molecular basis underlying this plasticity remains only poorly understood. ... -
Collective mitochondrial dynamics resolve conflicting cellular tensions: From plants to general principles
Johnston, Iain George; Chustecki, Joanna M. (Journal article; Peer reviewed, 2023)Mitochondria play diverse and essential roles in eukaryotic cells, and plants are no exception. Plant mitochondria have several differences from their metazoan and fungal cousins: they often exist in a fragmented state, ... -
Data-Driven Inference Reveals Distinct and Conserved Dynamic Pathways of Tool Use Emergence across Animal Taxa
Johnston, Iain George; Røyrvik, Ellen Christine (Journal article; Peer reviewed, 2020)Tool use is a striking aspect of animal behavior, but it is hard to infer how the capacity for different types of tool use emerged across animal taxa. Here we address this question with HyperTraPS, a statistical approach ... -
Dynamic Boolean modelling reveals the influence of energy supply on bacterial efflux pump expression
Johnston, Iain George; Jabbari, Sara; Kerr, Ryan; Blair, Jessica (Journal article; Peer reviewed, 2022)Antimicrobial resistance (AMR) is a global health issue. One key factor contributing to AMR is the ability of bacteria to export drugs through efflux pumps, which relies on the ATP-dependent expression and interaction of ... -
Efficient vasculature investment in tissues can be determined without global information
Johnston, Iain George; Bassel, George (Journal article; Peer reviewed, 2020)Cells are the fundamental building blocks of organs and tissues. Information and mass flow through cellular contacts in these structures is vital for the orchestration of organ function. Constraints imposed by packing and ... -
Evolving mtDNA populations within cells
Johnston, Iain George; Burgstaller, Joerg (Peer reviewed; Journal article, 2019)Mitochondrial DNA (mtDNA) encodes vital respiratory machinery. Populations of mtDNA molecules exist in most eukaryotic cells, subject to replication, degradation, mutation, and other population processes. These processes ... -
Exchange on dynamic encounter networks allows plant mitochondria to collect complete sets of mitochondrial DNA products despite their incomplete genomes
Giannakis, Konstantinos; Chustecki, Joanna M.; Johnston, Iain George (Journal article; Peer reviewed, 2022)Mitochondria in plant cells usually contain less than a full copy of the mitochondrial DNA (mtDNA) genome. Here, we asked whether mitochondrial dynamics may allow individual mitochondria to ‘collect’ a full set of mtDNA-encoded ... -
HyperHMM: efficient inference of evolutionary and progressive dynamics on hypercubic transition graphs
Moen, Marcus Theodor; Johnston, Iain George (Journal article; Peer reviewed, 2023)Motivation: The evolution of bacterial drug resistance and other features in biology, the progression of cancer and other diseases and a wide range of broader questions can often be viewed as the sequential stochastic ... -
Mitochondrial network state scales mtDNA genetic dynamics
Aryaman, Juvid; Bowles, Charlotte; Jones, Nick; Johnston, Iain George (Peer reviewed; Journal article, 2019)Mitochondrial DNA (mtDNA) mutations cause severe congenital diseases but may also be associated with healthy aging. mtDNA is stochastically replicated and degraded, and exists within organelles which undergo dynamic fusion ... -
Model selection and parameter estimation for root architecture models using likelihood-free inference
Ziegler, Clare; Dyson, Rosemary; Johnston, Iain George (Peer reviewed; Journal article, 2019)Plant root systems play vital roles in the biosphere, environment and agriculture, but the quantitative principles governing their growth and architecture remain poorly understood. The ‘forward problem’ of what root forms ... -
Network analysis of Arabidopsis mitochondrial dynamics reveals a resolved tradeoff between physical distribution and social connectivity
Chustecki, Joanna M.; Gibbs, Daniel J.; Bassel, George W.; Johnston, Iain George (Journal article; Peer reviewed, 2021)Mitochondria in plant cells exist largely as individual organelles which move, colocalize, and interact, but the cellular priorities addressed by these dynamics remain incompletely understood. Here, we elucidate these ... -
Optimal strategies in the Fighting Fantasy gaming system: influencing stochastic dynamics by gambling with limited resource
Johnston, Iain George (Journal article; Peer reviewed, 2022)In many games and other processes, participants can choose to intervene in some way that does not follow the usual progress of the game (for example, cheating at cards, or spying on rivals) which may provide benefits, but ... -
Precision identification of high-risk phenotypes and progression pathways in severe malaria without requiring longitudinal data
Johnston, Iain George; Hoffmann, Till; Greenbury, Sam; Cominetti, Ornella; Jallow, Muminatou; Kwiatkowski, Dominic; Barahona, Mauricio; Jones, Nick; Casals-Pascual, Climent (Peer reviewed; Journal article, 2019)More than 400,000 deaths from severe malaria (SM) are reported every year, mainly in African children. The diversity of clinical presentations associated with SM indicates important differences in disease pathogenesis that ... -
Quantification and uncertainty of root growth stimulation by elevated CO2 in a mature temperate deciduous forest
Ziegler, Clare; Kulawska, Aleksandra; Kourmouli, Angeliki; Hamilton, Liz; Shi, Zongbo; MacKenzie, A. Robert; Dyson, Rosemary J.; Johnston, Iain George (Journal article; Peer reviewed, 2023)Increasing CO2 levels are a major global challenge, and the potential mitigation of anthropogenic CO2 emissions by natural carbon sinks remains poorly understood. The uptake of elevated CO2 (eCO2) by the terrestrial ... -
Stromule Geometry Allows Optimal Spatial Regulation of Organelle Interactions in the Quasi-2D Cytoplasm
Johnston, Iain George; Schattat, Martin; Hause, Gerd; Niemeyer, Frederik; Reynvoet, Frisine; Prautsch, Jennifer; Erickson, Jennifer Lee (Journal article; Peer reviewed, 2023)In plant cells, plastids form elongated extensions called stromules, the regulation and purposes of which remain unclear. Here, we quantitatively explore how different stromule structures serve to enhance the ability of a ... -
Understanding learner behaviour in online courses with Bayesian modelling and time series characterisation
Johnston, Iain George; Greenbury, Sam; Peach, Robert; yaliraki, sophia; Lefèvre, David; Barahona, Mauricio (Journal article; Peer reviewed, 2021)The intrinsic temporality of learning demands the adoption of methodologies capable of exploiting time-series information. In this study we leverage the sequence data framework and show how data-driven analysis of temporal ... -
Varied mechanisms and models for the varying mitochondrial bottleneck
Johnston, Iain George (Peer reviewed; Journal article, 2019-11-20)Mitochondrial DNA (mtDNA) molecules exist in populations within cells, and may carry mutations. Different cells within an organism, and organisms within a family, may have different proportions of mutant mtDNA in these ...